PAX1.H12INVITRO.0.SM.B motif - HOmo sapiens COmprehensive MOdel COllection

Motif	PAX1.H12INVITRO.0.SM.B
Gene (human)	PAX1 (GeneCards)
Gene synonyms (human)	HUP48
Gene (mouse)	Pax1
Gene synonyms (mouse)	Pax-1
LOGO
LOGO (reverse complement)
Motif subtype	0
Quality	B

Motif length	18
Consensus	dnbhvnYbAWGCGTRWMb
GC content	53.7%
Information content (bits; total / per base)	13.001 / 0.722
Data sources	HT-SELEX + Methyl-HT-SELEX
Aligned words	9873

HT-SELEX benchmarking		auROC10	auPRC10	auROC25	auPRC25	auROC50	auPRC50
Overall, 4 experiments	median	0.829	0.838	0.786	0.794	0.763	0.768
Overall, 4 experiments	best	1.0	0.999	0.999	0.998	0.995	0.993
Methyl HT-SELEX, 1 experiments	median	0.999	0.999	0.997	0.996	0.987	0.984
Methyl HT-SELEX, 1 experiments	best	0.999	0.999	0.997	0.996	0.987	0.984
Non-Methyl HT-SELEX, 3 experiments	median	0.658	0.677	0.575	0.591	0.539	0.553
Non-Methyl HT-SELEX, 3 experiments	best	1.0	0.999	0.999	0.998	0.995	0.993

rSNP benchmarking, SNP-SELEX	auROC	auPRC	Pearson r	Kendall tau
batch 2	0.765	0.247	0.707	0.468

TF superclass	Helix-turn-helix domains {3} (TFClass)
TF class	Paired box factors {3.2} (TFClass)
TF family	PD {3.2.2} (TFClass)
TF subfamily	PAX1-like {3.2.2.1} (TFClass)
TFClass ID	TFClass: 3.2.2.1.1
HGNC	HGNC:8615
MGI	MGI:97485
EntrezGene (human)	GeneID:5075 (SSTAR profile)
EntrezGene (mouse)	GeneID:18503 (SSTAR profile)
UniProt ID (human)	PAX1_HUMAN
UniProt ID (mouse)	PAX1_MOUSE
UniProt AC (human)	P15863 (TFClass)
UniProt AC (mouse)	P09084 (TFClass)
GRECO-DB-TF	yes

ChIP-Seq	0 human, 0 mouse
HT-SELEX	3
Methyl-HT-SELEX	1

PCM	PAX1.H12INVITRO.0.SM.B.pcm
PWM	PAX1.H12INVITRO.0.SM.B.pwm
PFM	PAX1.H12INVITRO.0.SM.B.pfm
Alignment	PAX1.H12INVITRO.0.SM.B.words.tsv
Threshold to P-value map	PAX1.H12INVITRO.0.SM.B.thr
Motif in other formats
JASPAR format	PAX1.H12INVITRO.0.SM.B_jaspar_format.txt
MEME format	PAX1.H12INVITRO.0.SM.B_meme_format.meme
Transfac format	PAX1.H12INVITRO.0.SM.B_transfac_format.txt
Homer format	PAX1.H12INVITRO.0.SM.B_homer_format_0.001.txt PAX1.H12INVITRO.0.SM.B_homer_format_0.0005.txt PAX1.H12INVITRO.0.SM.B_homer_format_0.0001.txt

PCM

	A	C	G	T
01	2836.5	1529.5	3907.5	1599.5
02	2510.5	2478.5	2286.5	2597.5
03	706.0	2275.0	2602.0	4290.0
04	1818.0	5444.0	677.0	1934.0
05	4968.0	1549.0	2828.0	528.0
06	2785.0	1995.0	3075.0	2018.0
07	299.0	2174.0	648.0	6752.0
08	590.0	4789.0	3435.0	1059.0
09	7640.0	78.0	1662.0	493.0
10	7125.0	271.0	260.0	2217.0
11	2.0	1830.0	8030.0	11.0
12	7.0	9825.0	30.0	11.0
13	1527.0	12.0	8262.0	72.0
14	65.0	283.0	328.0	9197.0
15	2103.0	132.0	7081.0	557.0
16	7871.0	449.0	497.0	1056.0
17	1418.75	7542.75	325.75	585.75
18	1468.75	3110.75	3738.75	1554.75

PFM

	A	C	G	T
01	0.287	0.155	0.396	0.162
02	0.254	0.251	0.232	0.263
03	0.072	0.23	0.264	0.435
04	0.184	0.551	0.069	0.196
05	0.503	0.157	0.286	0.053
06	0.282	0.202	0.311	0.204
07	0.03	0.22	0.066	0.684
08	0.06	0.485	0.348	0.107
09	0.774	0.008	0.168	0.05
10	0.722	0.027	0.026	0.225
11	0.0	0.185	0.813	0.001
12	0.001	0.995	0.003	0.001
13	0.155	0.001	0.837	0.007
14	0.007	0.029	0.033	0.932
15	0.213	0.013	0.717	0.056
16	0.797	0.045	0.05	0.107
17	0.144	0.764	0.033	0.059
18	0.149	0.315	0.379	0.157

PWM

	A	C	G	T
01	0.139	-0.478	0.459	-0.433
02	0.017	0.004	-0.076	0.051
03	-1.249	-0.081	0.053	0.552
04	-0.305	0.79	-1.291	-0.244
05	0.699	-0.465	0.136	-1.539
06	0.121	-0.213	0.22	-0.201
07	-2.104	-0.127	-1.335	1.006
08	-1.428	0.662	0.33	-0.845
09	1.129	-3.426	-0.395	-1.607
10	1.059	-2.202	-2.243	-0.107
11	-6.354	-0.299	1.179	-5.224
12	-5.582	1.381	-4.337	-5.224
13	-0.48	-5.152	1.208	-3.504
14	-3.603	-2.159	-2.012	1.315
15	-0.16	-2.912	1.053	-1.486
16	1.159	-1.7	-1.599	-0.848
17	-0.553	1.116	-2.019	-1.435
18	-0.518	0.231	0.415	-0.462

Standard thresholds

P-value	Threshold
0.001	3.80051
0.0005	4.86626
0.0001	7.02681